DNA metabarcoding reveals modern and past eukaryotic communities in a high-mountain peat bog system

• Published in: Journal of Paleolimnology Vol. 62; no. 4; pp. 425 - 441
• Main Authors: Núria Cañellas-Boltà, Stefano Mariani, Teresa Vegas-Vilarrúbia, Ramón Pérez-Obiol, Albert Pèlachs, Aaron Pérez-Haase, Sandra Garcés-Pastor, Owen S. Wangensteen
• Format: Journal Article
• Language: English
• Published: Dordrecht Springer Science and Business Media LLC 01.12.2019; Springer Netherlands; Springer Nature B.V; Springer Nature
• Subjects: Amplification; Basale biofag: 470; Basic biosciences: 470; Biodiversity; Bogs; climate; Climate Change; Climate variability; Communities; Community DNA; Deoxyribonucleic acid; DNA; DNA barcoding; Earth and Environmental Science; Earth Sciences; Ecosystem assessment; Ecosystems; Eukaryotes; eukaryotic cells; Freshwater & Marine Ecology; functional diversity; Gene sequencing; Genetics and genomics: 474; Genetikk og genomikk: 474; Geology; lentic systems; limnology; Markers; Matematikk og Naturvitenskap: 400; Mathematics and natural science: 400; Microhabitats; mosses and liverworts; Mountains; Nucleotide sequence; nucleotide sequences; Original Paper; Palaeoecology; Paleoecology; Paleontology; Peat; Peat bog paleoecology; Peat bogs; peatlands; Physical Geography; Pollen; Pyrenees; Reconstruction; Sediment; Sediment samplers; Sediment samples; Sedimentary DNA; Sedimentology; Sediments; VDP; VDP::Matematikk og Naturvitenskap: 400::Basale biofag: 470::Genetikk og genomikk: 474; VDP::Mathematics and natural science: 400::Basic biosciences: 470::Genetics and genomics: 474; Eukaryotes; Pyrenees; Peat bog paleoecology; Sedimentary DNA; Community DNA
• ISSN: 0921-2728; 1573-0417; 1573-0417
• DOI: 10.1007/s10933-019-00097-x

Peat bogs located in high mountains are suitable places to study local environmental responses to climate variability. These ecosystems host a large number of eukaryotes with diverse taxonomic and functional diversity. We carried out a metabarcoding study using universal 18S and COI markers to explore the composition of past and present eukaryotic communities of a Pyrenean peat bog ecosystem. We assessed the molecular biodiversity of four different moss micro-habitats along a flood gradient in the lentic Bassa Nera system (Central Pyrenees). Five samples collected from different sediment depths at the same study site were also analysed, to test the suitability of these universal markers for studying paleoecological communities recovered from ancient DNA and to compare the detected DNA sequences to those obtained from the modern community. We also compared the information provided by the sedimentary DNA to the reconstruction from environmental proxies such as pollen and macro-remains from the same record. We successfully amplified ancient DNA with both universal markers from all sediment samples, including the deepest one (~ 10,000 years old). Most of the metabarcoding reads obtained from sediment samples, however, were assigned to living edaphic organisms and only a small fraction of those reads was considered to be derived from paleoecological communities. Inferences from ancient sedimentary DNA were complementary to the reconstruction based on pollen and macro-remains, and the combined records reveal more detailed information. This molecular study yielded promising findings regarding the diversity of modern eukaryotic peat bog communities. Nevertheless, even though information about past communities could be retrieved from sediment samples, preferential amplification of DNA from living communities is a caveat for the use of universal metabarcoding markers in paleoecology.